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RNA‐seq analyses of Arabidopsis thaliana seedlings after exposure to blue‐light phototropic stimuli in microgravity

American journal of botany, 2019-11, Vol.106 (11), p.1466-1476

2019

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Gene Coexpression Network Alignment and Conservation of Gene Modules between Two Grass Species: Maize and Rice

Plant physiology (Bethesda), 2011-07, Vol.156 (3), p.1244-1256

2011

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Laser Capture Microdissection Transcriptome Reveals Spatiotemporal Tissue Gene Expression Patterns of Medicago truncatula Roots Responding to Rhizobia

Molecular plant-microbe interactions, 2023-12, Vol.36 (12), p.MPMI03230029R-820

2023

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EdgeScaping: Mapping the spatial distribution of pairwise gene expression intensities

PloS one, 2019-08, Vol.14 (8), p.e0220279

2019

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Modes of gene duplication contribute differently to genetic novelty and redundancy, but show parallels across divergent angiosperms

PloS one, 2011-12, Vol.6 (12), p.e28150

2011

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Simulating the restoration of normal gene expression from different thyroid cancer stages using deep learning

BMC cancer, 2022-06, Vol.22 (1), p.612-612, Article 612

2022

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A scalable, open-source implementation of a large-scale mechanistic model for single cell proliferation and death signaling

Nature communications, 2022-06, Vol.13 (1), p.3555-3555, Article 3555

2022

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Discovering Condition-Specific Gene Co-Expression Patterns Using Gaussian Mixture Models: A Cancer Case Study

Scientific reports, 2017-08, Vol.7 (1), p.8617-11, Article 8617

2017

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GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure

BMC bioinformatics, 2022-05, Vol.23 (1), p.156-156, Article 156

2022

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Linking Binary Gene Relationships to Drivers of Renal Cell Carcinoma Reveals Convergent Function in Alternate Tumor Progression Paths

Scientific reports, 2019-02, Vol.9 (1), p.2899-2899, Article 2899

2019

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Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots

PloS one, 2016-05, Vol.11 (5), p.e0155637-e0155637

2016

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Meta-analysis of polyploid cotton QTL shows unequal contributions of subgenomes to a complex network of genes and gene clusters implicated in lint fiber development

Genetics (Austin), 2007-08, Vol.176 (4), p.2577-2588

2007

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NetExtractor: Extracting a Cerebellar Tissue Gene Regulatory Network Using Differentially Expressed High Mutual Information Binary RNA Profiles

G3 : genes - genomes - genetics, 2020-09, Vol.10 (9), p.2953-2963

2020

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Cancer cell redirection biomarker discovery using a mutual information approach

PloS one, 2017-06, Vol.12 (6), p.e0179265-e0179265

2017

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Enrichment of a subset of Neanderthal polymorphisms in autistic probands and siblings

Molecular psychiatry, 2024-05, Vol.29 (11), p.3452-3461

2024

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GPU Implementation of Pairwise Gaussian Mixture Models for Multi-Modal Gene Co-Expression Networks

IEEE access, 2019, Vol.7, p.160845-160857

2019

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Identification of bioconversion quantitative trait loci in the interspecific cross Sorghum bicolor × Sorghum propinquum

Theoretical and applied genetics, 2013-09, Vol.126 (9), p.2367-2380

2013

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Construction of physical maps for the sex-specific regions of papaya sex chromosomes

BMC genomics, 2012-05, Vol.13 (1), p.176-176, Article 176

2012

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Conserved non-coding regulatory signatures in Arabidopsis co-expressed gene modules

PloS one, 2012-09, Vol.7 (9), p.e45041-e45041

2012

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Moving Just Enough Deep Sequencing Data to Get the Job Done

Bioinformatics and biology insights, 2019, Vol.13, p.1177932219856359-1177932219856359

2019

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Cellular State Transformations Using Deep Learning for Precision Medicine Applications

Patterns (New York, N.Y.), 2020-09, Vol.1 (6), p.100087-100087, Article 100087

2020

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Evidence of function for conserved noncoding sequences in Arabidopsis thaliana

The New phytologist, 2012, Vol.193 (1), p.241-252

2012

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Systems genetics: A paradigm to improve discovery of candidate genes and mechanisms underlying complex traits

Plant science (Limerick), 2014-06, Vol.223, p.45-48

Feltus, F. Alex

2014

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first genome-level transcriptome of the wood-degrading fungus Phanerochaete chrysosporium grown on red oak

Current genetics, 2009-06, Vol.55 (3), p.273-286

2009

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Low X/Y divergence in four pairs of papaya sex-linked genes

The Plant journal : for cell and molecular biology, 2008-01, Vol.53 (1), p.124-132

2008

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RNA‐seq analyses of Arabidopsis thaliana seedlings after exposure to blue‐light phototropic stimuli in microgravity

Gene Coexpression Network Alignment and Conservation of Gene Modules between Two Grass Species: Maize and Rice

Laser Capture Microdissection Transcriptome Reveals Spatiotemporal Tissue Gene Expression Patterns of Medicago truncatula Roots Responding to Rhizobia

EdgeScaping: Mapping the spatial distribution of pairwise gene expression intensities

Modes of gene duplication contribute differently to genetic novelty and redundancy, but show parallels across divergent angiosperms

Simulating the restoration of normal gene expression from different thyroid cancer stages using deep learning

A scalable, open-source implementation of a large-scale mechanistic model for single cell proliferation and death signaling

Discovering Condition-Specific Gene Co-Expression Patterns Using Gaussian Mixture Models: A Cancer Case Study

GEMmaker: process massive RNA-seq datasets on heterogeneous computational infrastructure

Linking Binary Gene Relationships to Drivers of Renal Cell Carcinoma Reveals Convergent Function in Alternate Tumor Progression Paths

Large-Scale Gene Relocations following an Ancient Genome Triplication Associated with the Diversification of Core Eudicots

Meta-analysis of polyploid cotton QTL shows unequal contributions of subgenomes to a complex network of genes and gene clusters implicated in lint fiber development

NetExtractor: Extracting a Cerebellar Tissue Gene Regulatory Network Using Differentially Expressed High Mutual Information Binary RNA Profiles

Cancer cell redirection biomarker discovery using a mutual information approach

Enrichment of a subset of Neanderthal polymorphisms in autistic probands and siblings

GPU Implementation of Pairwise Gaussian Mixture Models for Multi-Modal Gene Co-Expression Networks

Identification of bioconversion quantitative trait loci in the interspecific cross Sorghum bicolor × Sorghum propinquum

Construction of physical maps for the sex-specific regions of papaya sex chromosomes

Conserved non-coding regulatory signatures in Arabidopsis co-expressed gene modules

Moving Just Enough Deep Sequencing Data to Get the Job Done

Cellular State Transformations Using Deep Learning for Precision Medicine Applications

Evidence of function for conserved noncoding sequences in Arabidopsis thaliana

Systems genetics: A paradigm to improve discovery of candidate genes and mechanisms underlying complex traits

first genome-level transcriptome of the wood-degrading fungus Phanerochaete chrysosporium grown on red oak

Low X/Y divergence in four pairs of papaya sex-linked genes

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